10.5061/DRYAD.82P92
Leaché, Adam D.
University of Washington
Linkem, Charles W.
University of Washington
Data from: Phylogenomics of horned lizards (genus: Phrynosoma) using
targeted sequence capture data
Dryad
dataset
2016
Concatenation
SVD quartets
Phrynosomatidae
Phrynosoma
2016-06-11T00:00:00Z
2016-06-11T00:00:00Z
en
https://doi.org/10.1643/CH-15-248
2770185 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
New genome sequencing techniques are enabling phylogenetic studies to
scale-up from using a handful of loci to hundreds or thousands of loci
from throughout the genome. In this study, we use targeted sequence
capture (TSC) data from 540 ultraconserved elements and 44 protein-coding
genes to estimate the phylogenetic relationships among all 17 species of
horned lizards in the genus Phrynosoma. Previous molecular phylogenetic
analyses of Phrynosoma based on a few nuclear genes, restriction site
associated DNA (RAD) sequencing, or mitochondrial DNA (mtDNA) have
produced conflicting relationships. Some of these conflicts are likely the
result of rapid speciation at the start of Phrynosoma diversification,
whereas other examples of gene tree discordance appear to be caused by
active and residual traces of hybridization. Concatenation and
coalescent-based species tree phylogenetic analyses of these new TSC data
support the same topology, and a divergence dating analysis suggests that
the Phrynosoma crown group is up to 30 million years old. The new
phylogenomic tree supports the recognition of four main clades within
Phrynosoma, including Anota (P. mcallii, P. solare, and the P. coronatum
complex), Doliosaurus (P. modestum, P. goodei, and P. platyrhinos), Tapaja
(P. ditmarsi, P. douglasii, P. hernandesi, and P. orbiculare), and
Brevicauda (P. braconnieri, P. sherbrookei, and P. taurus). The phylogeny
provides strong support for the relationships among all species of
Phrynosoma and provides a robust new framework for conducting comparative
analyses.
LociTargeted sequence capture data for horned lizards (Phrynosoma). The
file contains nexus data files for 584 loci, as well as a concatenated
data file containing partition information.
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